Citrus Sinensis ID: 035523

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-----
Protein Sequence
MACKLCSQRSSSTGTGIGIADAATSLYYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEYSRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKITAPPF
Secondary Structure (PSIPRED)
ccEEEcccccccccccEEEEEccccHHHHHHHHHHHHHHHHccccccccccccccEEEEcccEEEEcccccccccccEEEEccccEEEEHHHHccccEEEEcccccccccccccccEEEEccccc
Secondary Structure Prediction (SSPRO)
ccEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEEEcccEEEEccccccccccEEEEEcccccHHHHHHHccccEEEEccccccccccccccEEEEEccccc
Coil and Loop (DISEMBL)
macklcsqrssstgtgigiADAATSLYYCAFVLVGILLLSscsssssrdqdrdtsvsiegtsrmvlnkyeysrpcdeiyvvgegetlhtisdkcgdpfivehnphihdpddlfpglvikitappf
Flexible Loop (DISEMBL)
macklcsqrssstgtgIGIADAATSLYYCAFVLVGILLLSscsssssrdqdrdtsvsiegtsrmvlnkyeysrpCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKITAPPF
Low Complexity Region (SEG)
MACKLCSQRSSSTGTGIGIADAATSLYYCAFVLVGIlllsscsssssRDQDRDTSVSIEGTSRMVLNKYEYSRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKITAPPF
Disordered region (IsUnstruct)
**************TGIGIADAATSLYYCAFVLVGILLLS**********************RMVLNKYEYSRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKIT****
Disordered Region (DISOPRED)
*********************AATSLYYCAFVLVGILLLSSCSS*************************EYSRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKITAP**
Disordered Region (DISEMBL)
**************TGIGIADAATSLYYCAFVLVGILLLSS***************SIEGTSRMVLNKYEYSRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKITAPPF
Disordered Region (DISPRO)
*******************ADAATSLYYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEYSRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKITAPPF
Transmembrane Helix (TMHMM)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MACKLCSQRSSSTGTGIGIADAATSLYYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEYSRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKITAPPF
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	125
356506314	114	PREDICTED: uncharacterized protein LOC10	0.688	0.754	0.601	8e-27
147767756	113	hypothetical protein VITISV_027722 [Viti	0.752	0.831	0.588	2e-26
225469318	113	PREDICTED: uncharacterized protein LOC10	0.752	0.831	0.588	3e-26
255646878	112	unknown [Glycine max]	0.72	0.803	0.615	3e-26
356520475	112	PREDICTED: uncharacterized protein LOC10	0.72	0.803	0.615	4e-26
224127542	120	predicted protein [Populus trichocarpa]	0.784	0.816	0.577	6e-26
388505396	115	unknown [Lotus japonicus]	0.8	0.869	0.562	1e-25
357515639	116	hypothetical protein MTR_8g043660 [Medic	0.848	0.913	0.556	1e-25
388522061	113	unknown [Lotus japonicus]	0.8	0.884	0.562	2e-25
449465170	120	PREDICTED: uncharacterized protein LOC10	0.68	0.708	0.593	9e-25

>gi|356506314|ref|XP_003521930.1| PREDICTED: uncharacterized protein LOC100813243 [Glycine max]

 Score =  124 bits (311), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 65/108 (60%), Positives = 77/108 (71%), Gaps = 22/108 (20%)

Query: 18  GIADAATSLYYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVL----NKYEYSR 73
            IADAA+  +YCAFVLV ++LLS                  +G+S M+L    N    SR
Sbjct: 18  AIADAAS--WYCAFVLVALVLLSM----------------FKGSSIMMLPSHANNQLLSR 59

Query: 74  PCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKIT 121
           PC+EIYVVGEGETLHTISDKCGDPFIVE+NPHIHDPDD+FPGLVI++T
Sbjct: 60  PCEEIYVVGEGETLHTISDKCGDPFIVENNPHIHDPDDVFPGLVIEVT 107

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147767756|emb|CAN62985.1| hypothetical protein VITISV_027722 [Vitis vinifera]

 Score =  122 bits (307), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 63/107 (58%), Positives = 76/107 (71%), Gaps = 13/107 (12%)

Query: 15  TGIGIADAATSLYYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEYSRP 74
           + + +ADAA+   YCA +LV ++LL S    SS   D     S++G   +       +RP
Sbjct: 11  SSVAVADAASC--YCAVILVALILLXSVREYSSLPTDE----SVKGXQLL-------ARP 57

Query: 75  CDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKIT 121
           CDEIYVVGEGETLHTISDKCGDP+IVE NPHIHDPDD+FPGLVIKIT
Sbjct: 58  CDEIYVVGEGETLHTISDKCGDPYIVEQNPHIHDPDDVFPGLVIKIT 104

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225469318|ref|XP_002270367.1| PREDICTED: uncharacterized protein LOC100255607 [Vitis vinifera]

 Score =  122 bits (306), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 63/107 (58%), Positives = 77/107 (71%), Gaps = 13/107 (12%)

Query: 15  TGIGIADAATSLYYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEYSRP 74
           + + +ADAA+   YCA +LV ++LL+S    SS   D     S++G   +       +RP
Sbjct: 11  SSVAVADAASC--YCAVILVALILLASVREYSSLPTDE----SVKGHQLL-------ARP 57

Query: 75  CDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKIT 121
           CDEIYVVGEGETLHTISDKCGDP+IVE NPHIHDPDD+FPGLVIKIT
Sbjct: 58  CDEIYVVGEGETLHTISDKCGDPYIVEQNPHIHDPDDVFPGLVIKIT 104

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255646878|gb|ACU23909.1| unknown [Glycine max]

 Score =  122 bits (306), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 64/104 (61%), Positives = 73/104 (70%), Gaps = 14/104 (13%)

Query: 18  GIADAATSLYYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEYSRPCDE 77
            IA+AA+  +YCAFVLV + LLS    SS     +  S  +             SRPC+E
Sbjct: 18  AIANAAS--WYCAFVLVALALLSMFKDSSMLIPSQHASGQL------------LSRPCEE 63

Query: 78  IYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKIT 121
           IYVVGEGETLHTISDKCGDPFIVE+NPHIHDPDD+FPGLVIKIT
Sbjct: 64  IYVVGEGETLHTISDKCGDPFIVENNPHIHDPDDVFPGLVIKIT 107

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356520475|ref|XP_003528887.1| PREDICTED: uncharacterized protein LOC100815990 [Glycine max]

 Score =  121 bits (304), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 64/104 (61%), Positives = 73/104 (70%), Gaps = 14/104 (13%)

Query: 18  GIADAATSLYYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEYSRPCDE 77
            IA+AA+  +YCAFVLV + LLS    SS     +  S  +             SRPC+E
Sbjct: 18  AIANAAS--WYCAFVLVALALLSMFKDSSMLIPSQYASGQL------------LSRPCEE 63

Query: 78  IYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKIT 121
           IYVVGEGETLHTISDKCGDPFIVE+NPHIHDPDD+FPGLVIKIT
Sbjct: 64  IYVVGEGETLHTISDKCGDPFIVENNPHIHDPDDVFPGLVIKIT 107

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127542|ref|XP_002320100.1| predicted protein [Populus trichocarpa] gi|222860873|gb|EEE98415.1| predicted protein [Populus trichocarpa]

 Score =  121 bits (303), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 63/109 (57%), Positives = 75/109 (68%), Gaps = 11/109 (10%)

Query: 15  TGIGIADAATSLYYCAFVLVGILLLSSCSSSSSR--DQDRDTSVSIEGTSRMVLNKYEYS 72
           T   IADAAT  +YCA VL+ ++L +S   +S    D      V+++G   +        
Sbjct: 12  TSTSIADAAT--WYCALVLLALILFTSLREASPTYDDDHHHDFVAVKGNQIL-------D 62

Query: 73  RPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKIT 121
           RPCDEIYVV EGETLHTISDKCGDPFIVE NPHIHDPDD++PGLVIKIT
Sbjct: 63  RPCDEIYVVKEGETLHTISDKCGDPFIVEENPHIHDPDDVYPGLVIKIT 111

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388505396|gb|AFK40764.1| unknown [Lotus japonicus]

 Score =  120 bits (301), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 63/112 (56%), Positives = 73/112 (65%), Gaps = 12/112 (10%)

Query: 12  STGTGIGIADAATSLYYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEY 71
           ST T     D+A+  ++CA VL+GI+LL S   S+S   D D           V      
Sbjct: 6   STATRKSRTDSAS--WFCAMVLLGIILLGSIKESTSNTSDGDE----------VRGNNLR 53

Query: 72  SRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKITAP 123
            R CDEIYVVGEGETL+TISDKCGDPFIVE NPHIHDPDD+FPGLVI+I  P
Sbjct: 54  DRACDEIYVVGEGETLNTISDKCGDPFIVERNPHIHDPDDVFPGLVIRIITP 105

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357515639|ref|XP_003628108.1| hypothetical protein MTR_8g043660 [Medicago truncatula] gi|357515653|ref|XP_003628115.1| hypothetical protein MTR_8g043870 [Medicago truncatula] gi|355522130|gb|AET02584.1| hypothetical protein MTR_8g043660 [Medicago truncatula] gi|355522137|gb|AET02591.1| hypothetical protein MTR_8g043870 [Medicago truncatula]

 Score =  120 bits (300), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 64/115 (55%), Positives = 80/115 (69%), Gaps = 9/115 (7%)

Query: 7   SQRSSSTGTGIGIADAATSLYYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVL 66
           + R  +  +   IA+AA+  +YCA  LV ++LLS    SS    + D ++ IE       
Sbjct: 5   NSRKGAILSSKAIAEAAS--WYCAIFLVALILLSIFRDSSMIPNNNDHNM-IES------ 55

Query: 67  NKYEYSRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKIT 121
           N +  S+PCDEIYVVGEGETL+TISDKC DPFIVE+NPHIHDPDD+FPGLVIKIT
Sbjct: 56  NHFLSSKPCDEIYVVGEGETLNTISDKCNDPFIVENNPHIHDPDDVFPGLVIKIT 110

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388522061|gb|AFK49092.1| unknown [Lotus japonicus]

 Score =  119 bits (299), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 63/112 (56%), Positives = 73/112 (65%), Gaps = 12/112 (10%)

Query: 12  STGTGIGIADAATSLYYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEY 71
           ST T     D+A+  ++CA VL+GI+LL S   S+S   D D           V      
Sbjct: 4   STATRKSRTDSAS--WFCAMVLLGIILLGSIKESTSNTSDGDE----------VRGNNLR 51

Query: 72  SRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKITAP 123
            R CDEIYVVGEGETL+TISDKCGDPFIVE NPHIHDPDD+FPGLVI+I  P
Sbjct: 52  DRACDEIYVVGEGETLNTISDKCGDPFIVERNPHIHDPDDVFPGLVIRIITP 103

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449465170|ref|XP_004150301.1| PREDICTED: uncharacterized protein LOC101210054 [Cucumis sativus] gi|449516711|ref|XP_004165390.1| PREDICTED: uncharacterized LOC101210054 [Cucumis sativus]

 Score =  117 bits (293), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 57/96 (59%), Positives = 67/96 (69%), Gaps = 11/96 (11%)

Query: 27  YYCAFVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEYSRPCDEIYVVGEGET 86
           +YCA  L+G++L+ S   +SS            G  R++       RPCDEIYVVGEGET
Sbjct: 25  WYCAVGLLGLILIGSIRETSS-----------SGDGRLLRGNLVTWRPCDEIYVVGEGET 73

Query: 87  LHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKITA 122
           LHTISDKCGDP+IVE NPHIHDPDD+FPGLVIKI A
Sbjct: 74  LHTISDKCGDPYIVERNPHIHDPDDVFPGLVIKIIA 109

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	125
TAIR|locus:2174093	102	AT5G62150 "AT5G62150" [Arabido	0.544	0.666	0.666	1.9e-21
TAIR|locus:504955292	110	AT4G25433 "AT4G25433" [Arabido	0.424	0.481	0.754	3.5e-20
TAIR|locus:2083293	109	AT3G52790 "AT3G52790" [Arabido	0.576	0.660	0.602	2.5e-19

TAIR|locus:2174093 AT5G62150 "AT5G62150" [Arabidopsis thaliana (taxid:3702)]

 Score = 251 (93.4 bits), Expect = 1.9e-21, P = 1.9e-21
 Identities = 46/69 (66%), Positives = 53/69 (76%)

Query:    55 SVSIEGTSRMVLNKYEYSRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFP 114
             SV     S  +      ++PC+EIY+VGEGETLHTI DKCGDPFIVE NPHIHDPDD+FP
Sbjct:    28 SVRENNASNSIRGSQFSTKPCEEIYIVGEGETLHTIGDKCGDPFIVERNPHIHDPDDVFP 87

Query:   115 GLVIKITAP 123
             GLV+KI AP
Sbjct:    88 GLVLKI-AP 95

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0016998 "cell wall macromolecule catabolic process" evidence=ISS

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA

TAIR|locus:504955292 AT4G25433 "AT4G25433" [Arabidopsis thaliana (taxid:3702)]

 Score = 239 (89.2 bits), Expect = 3.5e-20, P = 3.5e-20
 Identities = 40/53 (75%), Positives = 48/53 (90%)

Query:    68 KYEYSRPCDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHDPDDLFPGLVIKI 120
             K    RPC+E+YVVGEG+TLH+IS+KCGDPFIVE NPHIHDPDD+FPGL+IK+
Sbjct:    52 KQMMERPCEELYVVGEGDTLHSISEKCGDPFIVERNPHIHDPDDVFPGLLIKL 104

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0016998 "cell wall macromolecule catabolic process" evidence=IEA;ISS

TAIR|locus:2083293 AT3G52790 "AT3G52790" [Arabidopsis thaliana (taxid:3702)]

 Score = 231 (86.4 bits), Expect = 2.5e-19, P = 2.5e-19
 Identities = 44/73 (60%), Positives = 54/73 (73%)

Query:    50 QDRDTSVSIEGTSRMVLNKYEYSRP-CDEIYVVGEGETLHTISDKCGDPFIVEHNPHIHD 108
             Q+  T +  +    M++  Y + RP CDEIY V EGETL TIS+KCGDP+IVE NPHIHD
Sbjct:    34 QEGSTEIVEKQQPSMMITGYSHRRPACDEIYEVKEGETLQTISEKCGDPYIVEGNPHIHD 93

Query:   109 PDDLFPGLVIKIT 121
              DDLFPGL+I+IT
Sbjct:    94 HDDLFPGLLIRIT 106


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.139   0.428    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      125       114   0.00091  102 3  11 22  0.47    30
                                                     29  0.44    32


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  3
  No. of states in DFA:  553 (59 KB)
  Total size of DFA:  126 KB (2081 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  11.57u 0.13s 11.70t   Elapsed:  00:00:01
  Total cpu time:  11.57u 0.13s 11.70t   Elapsed:  00:00:01
  Start:  Mon May 20 18:38:40 2013   End:  Mon May 20 18:38:41 2013

GO:0003674 "molecular_function" evidence=ND

GO:0016998 "cell wall macromolecule catabolic process" evidence=IEA;ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	125
PRK11198	147	PRK11198, PRK11198, LysM domain/BON superfamily pr	2e-05
cd00118	45	cd00118, LysM, Lysine Motif is a small domain invo	2e-05
TIGR02899	44	TIGR02899, spore_safA, spore coat assembly protein	0.003
smart00257	44	smart00257, LysM, Lysin motif	0.004

>gnl|CDD|236880 PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional

 Score = 41.4 bits (98), Expect = 2e-05
 Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 8/57 (14%)

Query: 74  PCDEIYVVGEGETLHTISDKC-GD----PFIVEHN-PHIHDPDDLFPGLVIKITAPP 124
           P  + Y V  G+TL  I+ K  G+      I E N P +  PD ++PG V++I  P 
Sbjct: 93  PESQFYTVKSGDTLSAIAKKVYGNANKYNKIFEANKPMLKSPDKIYPGQVLRI--PE 147

Length = 147

>gnl|CDD|212030 cd00118, LysM, Lysine Motif is a small domain involved in binding peptidoglycan

 Score = 39.0 bits (92), Expect = 2e-05
 Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 3/45 (6%)

Query: 78  IYVVGEGETLHTISDKCGDPF--IVEHNPHIHDPDDLFPGLVIKI 120
            Y V  G+TL +I+ K G     +   NP + +PD ++PG  +KI
Sbjct: 2   TYTVKPGDTLWSIAKKYGVTVEELAAANP-LINPDCIYPGQKLKI 45

LysM, a small globular domain with approximately 40 amino acids, is a widespread protein module involved in binding peptidoglycan in bacteria and chitin in eukaryotes. The domain was originally identified in enzymes that degrade bacterial cell walls, but proteins involved in many other biological functions also contain this domain. It has been reported that the LysM domain functions as a signal for specific plant-bacteria recognition in bacterial pathogenesis. Many of these enzymes are modular and are composed of catalytic units linked to one or several repeats of LysM domains. LysM domains are found in bacteria and eukaryotes. Length = 45

>gnl|CDD|131945 TIGR02899, spore_safA, spore coat assembly protein SafA

 Score = 33.2 bits (76), Expect = 0.003
 Identities = 16/42 (38%), Positives = 28/42 (66%), Gaps = 2/42 (4%)

Query: 81  VGEGETLHTISDKCGDPF--IVEHNPHIHDPDDLFPGLVIKI 120
           V +G+TL  I+ K G  F  +++ NP + +P+ ++PG+ IKI
Sbjct: 1   VQKGDTLWKIAKKYGVDFDELIQANPQLSNPNLIYPGMKIKI 42

SafA (YrbB) (SafA) of Bacillus subtilis is a protein found at the interface of the spore cortex and spore coat, and is dependent on SpoVID for its localization. This model is based on the N-terminal LysM (lysin motif) domain (see pfam01476) of SafA and, from several other spore-forming species, the protein with the most similar N-terminal region. However, this set of proteins differs greatly in C-terminal of the LysM domaim; blocks of 12-residue and 13-residue repeats are found in the Bacillus cereus group, tandem LysM domains in Thermoanaerobacter tengcongensis MB4, etc. in which one of which is found in most examples of endospore-forming bacteria. Lysin motifs are repeated in many proteins [Cellular processes, Sporulation and germination]. Length = 44

>gnl|CDD|197609 smart00257, LysM, Lysin motif

 Score = 32.8 bits (76), Expect = 0.004
 Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 3/45 (6%)

Query: 78  IYVVGEGETLHTISDKCGDPF--IVEHNPHIHDPDDLFPGLVIKI 120
            Y V +G+TL +I+ + G     ++E N  I DPD+L  G  +KI
Sbjct: 1   TYTVKKGDTLSSIARRYGISVSDLLELNN-ILDPDNLQVGQKLKI 44

Length = 44

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	125
PRK10871	319	nlpD lipoprotein NlpD; Provisional	99.73
PF01476	44	LysM: LysM domain; InterPro: IPR018392 This domain	99.55
PRK14125	103	cell division suppressor protein YneA; Provisional	99.4
TIGR02899	44	spore_safA spore coat assembly protein SafA. in wh	99.39
PRK11198	147	LysM domain/BON superfamily protein; Provisional	99.27
cd00118	46	LysM Lysin domain, found in a variety of enzymes i	99.18
COG1652	269	XkdP Uncharacterized protein containing LysM domai	99.11
PRK13914	481	invasion associated secreted endopeptidase; Provis	98.95
smart00257	44	LysM Lysin motif.	98.93
COG1388	124	LytE FOG: LysM repeat [Cell envelope biogenesis, o	98.8
TIGR02907	338	spore_VI_D stage VI sporulation protein D. SpoVID,	98.79
PRK06347	592	autolysin; Reviewed	98.74
PRK10783	456	mltD membrane-bound lytic murein transglycosylase	98.72
PRK13914	481	invasion associated secreted endopeptidase; Provis	98.63
PRK06347	592	autolysin; Reviewed	98.59
PRK10783	456	mltD membrane-bound lytic murein transglycosylase	98.39
TIGR03505	74	FimV_core FimV N-terminal domain. This region is f	98.22
PRK10260	306	L,D-transpeptidase; Provisional	98.13
PF04225	85	OapA: Opacity-associated protein A LysM-like domai	98.13
PRK10190	310	L,D-transpeptidase; Provisional	98.01
PF05489	60	Phage_tail_X: Phage Tail Protein X; InterPro: IPR0	97.77
COG3170	755	FimV Tfp pilus assembly protein FimV [Cell motilit	97.25
PRK11649	439	putative peptidase; Provisional	96.46
COG3858	423	Predicted glycosyl hydrolase [General function pre	96.39
COG4254	339	Uncharacterized protein conserved in bacteria [Fun	95.61
COG3858	423	Predicted glycosyl hydrolase [General function pre	95.32
COG0739	277	NlpD Membrane proteins related to metalloendopepti	92.53
COG5004	70	P2-like prophage tail protein X [General function	91.19
COG4784	479	Putative Zn-dependent protease [General function p	90.8
TIGR03352	146	VI_chp_3 type VI secretion lipoprotein, VC_A0113 f	88.65
COG3061	242	OapA Cell envelope opacity-associated protein A [C	87.61

>PRK10871 nlpD lipoprotein NlpD; Provisional

Probab=99.73  E-value=1.5e-17  Score=139.88  Aligned_cols=92  Identities=21%  Similarity=0.206  Sum_probs=63.2

Q ss_pred             HHHHHHHHHH-HHhhc-CCCCCCCCCCccccccccccc--ceecccccCCCCCCceEEeccCchHHHHHHHhC-Chhhhh
Q 035523           27 YYCAFVLVGI-LLLSS-CSSSSSRDQDRDTSVSIEGTS--RMVLNKYEYSRPCDEIYVVGEGETLHTISDKCG-DPFIVE  101 (125)
Q Consensus        27 ~~~al~l~al-Ll~cS-~~~~~apv~d~~~~~~~~~~~--~~~~~~~~~~~~~~~~Y~Vk~GDTL~~IA~r~g-d~~il~  101 (125)
                      |..++.++.+ |++|| +...++|+.+...     +..  -..+.+...+...+++|+||+|||||+||++|| +.+.|+
T Consensus        12 ~~~~~~~~~~~l~gCs~~~~~~apv~~~~~-----~~~~~~r~~~~~~~g~~~~~~y~Vk~GDTL~~IA~~~g~~~~~La   86 (319)
T PRK10871         12 RIAALSLVSLWLAGCSNTSNPPAPVSSVGN-----GRIVYNRQYGNIPKGSYSGSTYTVKKGDTLFYIAWITGNDFRDLA   86 (319)
T ss_pred             HHHHHHHHHHHhhhhcCCCCCCCceeeccc-----cccccccccccccCCCCCCCceEECCCCHHHHHHHHHCcCHHHHH
Confidence            5555544444 77899 5678899885310     000  001111111223467899999999999999999 557777


Q ss_pred             hCCCCCCCCCcCCCcEEEeCCC
Q 035523          102 HNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus       102 ~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      ++|+|.||+.|||||+|+|+.+
T Consensus        87 ~~N~l~~p~~I~~GQ~L~i~~~  108 (319)
T PRK10871         87 QRNNIQAPYSLNVGQTLQVGNA  108 (319)
T ss_pred             HhcCCCCCccccCCCEEEeCCC
Confidence            7779999999999999999643

>PF01476 LysM: LysM domain; InterPro: IPR018392 This domain is about 40 residues long and is found in a variety of enzymes involved in bacterial cell wall degradation []

Probab=99.55  E-value=3.7e-15  Score=89.07  Aligned_cols=42  Identities=36%  Similarity=0.594  Sum_probs=35.3

Q ss_pred             EEeccCchHHHHHHHhCCh--hhhhhCCCCCCCCCcCCCcEEEeC
Q 035523           79 YVVGEGETLHTISDKCGDP--FIVEHNPHIHDPDDLFPGLVIKIT  121 (125)
Q Consensus        79 Y~Vk~GDTL~~IA~r~gd~--~il~~Np~I~nP~~I~PGQvIrI~  121 (125)
                      |+||+|||||+||.+||..  .+.++||++.+++ |+|||+|.||
T Consensus         1 y~V~~gDtl~~IA~~~~~~~~~l~~~N~~~~~~~-l~~G~~l~iP   44 (44)
T PF01476_consen    1 YTVQPGDTLWSIAKRYGISVDELMELNPNIDSDN-LQPGQKLCIP   44 (44)
T ss_dssp             EEE-TT--HHHHHHHTTS-HHHHHHHCCTTHGGC-GGTTEEEEEC
T ss_pred             CEECcCCcHHHHHhhhhhhHhHHHHhcCCCCccc-CCCCCEEEeC
Confidence            9999999999999999954  5999999998888 9999999997

This domain may have a general peptidoglycan binding function.; GO: 0016998 cell wall macromolecule catabolic process; PDB: 2DJP_A 3ZQD_A 1Y7M_B 4A52_A 2L9Y_A 1E0G_A.

>PRK14125 cell division suppressor protein YneA; Provisional

Probab=99.40  E-value=7.7e-13  Score=95.46  Aligned_cols=48  Identities=21%  Similarity=0.177  Sum_probs=38.8

Q ss_pred             CCceEEeccCchHHHHHHHhCCh---------hhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523           75 CDEIYVVGEGETLHTISDKCGDP---------FIVEHNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        75 ~~~~Y~Vk~GDTL~~IA~r~gd~---------~il~~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      ....|+|++|||||+||++|+..         ..++++|+|+++ .|+|||+|+||..
T Consensus        35 ~~~~~tV~~GDTLW~IA~~y~~~~~l~~~~~v~~I~~~N~l~~~-~I~~Gq~L~IP~~   91 (103)
T PRK14125         35 QYVEITVQEGDTLWALADQYAGKHHMAKNEFIEWVEDVNNLPSG-HIKAGDKLVIPVL   91 (103)
T ss_pred             CcEEEEECCCCCHHHHHHHhCCCcCCCHHHHHHHHHHhcCCCCC-cCCCCCEEEEecC
Confidence            45679999999999999999631         245667799776 6999999999853

>TIGR02899 spore_safA spore coat assembly protein SafA

Probab=99.39  E-value=3.8e-13  Score=78.49  Aligned_cols=42  Identities=36%  Similarity=0.703  Sum_probs=37.1

Q ss_pred             eccCchHHHHHHHhCC-h-hhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523           81 VGEGETLHTISDKCGD-P-FIVEHNPHIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        81 Vk~GDTL~~IA~r~gd-~-~il~~Np~I~nP~~I~PGQvIrI~~  122 (125)
                      |++|||||+||++||. . .+.+.||.+.+|+.|+|||+|+||.
T Consensus         1 v~~gdtl~~IA~~~~~~~~~l~~~N~~~~~~~~~~~g~~l~ip~   44 (44)
T TIGR02899         1 VQKGDTLWKIAKKYGVDFDELIQANPQLSNPNLIYPGMKIKIPS   44 (44)
T ss_pred             CCCCCCHHHHHHHHCcCHHHHHHHhhcCCCCCCcCCCCEEecCC
Confidence            7899999999999984 3 5888888899999999999999973

in which one of which is found in most examples of endospore-forming bacteria. Lysin motifs are repeated in many proteins.

>PRK11198 LysM domain/BON superfamily protein; Provisional

Probab=99.27  E-value=7e-12  Score=94.05  Aligned_cols=48  Identities=35%  Similarity=0.697  Sum_probs=41.7

Q ss_pred             CCceEEeccCchHHHHHHHh-CCh----hhhhhCC-CCCCCCCcCCCcEEEeCC
Q 035523           75 CDEIYVVGEGETLHTISDKC-GDP----FIVEHNP-HIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        75 ~~~~Y~Vk~GDTL~~IA~r~-gd~----~il~~Np-~I~nP~~I~PGQvIrI~~  122 (125)
                      ....|+||+|||||+||.+| |+.    .|+++|+ .|.||+.|+|||+|+||+
T Consensus        94 ~~~~y~Vk~GDTL~~IA~~~~g~~~~~~~I~~~N~~~l~~~~~I~pGq~L~IP~  147 (147)
T PRK11198         94 ESQFYTVKSGDTLSAIAKKVYGNANKYNKIFEANKPMLKSPDKIYPGQVLRIPE  147 (147)
T ss_pred             CCeEEEECCCCCHHHHHHHHcCChhhHHHHHHhhhhcCCCcCCcCcCCEEecCC
Confidence            45689999999999999997 553    4888884 589999999999999986

>cd00118 LysM Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation

Probab=99.18  E-value=4.8e-11  Score=66.91  Aligned_cols=43  Identities=35%  Similarity=0.538  Sum_probs=36.4

Q ss_pred             eEEeccCchHHHHHHHhCC-h-hhhhhCCCCCCCCCcCCCcEEEeC
Q 035523           78 IYVVGEGETLHTISDKCGD-P-FIVEHNPHIHDPDDLFPGLVIKIT  121 (125)
Q Consensus        78 ~Y~Vk~GDTL~~IA~r~gd-~-~il~~Np~I~nP~~I~PGQvIrI~  121 (125)
                      .|+|++|||+|+||.+||. . .+.+.|+. .+++.|.|||+|+||
T Consensus         2 ~~~v~~gdt~~~ia~~~~~~~~~~~~~N~~-~~~~~~~~g~~l~ip   46 (46)
T cd00118           2 TYTVKKGDTLSSIAQRYGISVEELLKLNGL-SDPDNLQVGQKLKIP   46 (46)
T ss_pred             EEEECCCCCHHHHHHHHCcCHHHHHHHcCC-CCccccCCCCEEecC
Confidence            5999999999999999984 3 46666654 788999999999986

This domain may have a general peptidoglycan binding function.

>COG1652 XkdP Uncharacterized protein containing LysM domain [Function unknown]

Probab=99.11  E-value=2.9e-11  Score=96.76  Aligned_cols=46  Identities=39%  Similarity=0.598  Sum_probs=41.8

Q ss_pred             eEEeccCchHHHHHHH-hCCh----hhhhhCC--CCCCCCCcCCCcEEEeCCC
Q 035523           78 IYVVGEGETLHTISDK-CGDP----FIVEHNP--HIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        78 ~Y~Vk~GDTL~~IA~r-~gd~----~il~~Np--~I~nP~~I~PGQvIrI~~~  123 (125)
                      .|+|++|||||.||.+ ||+.    .|+++|.  .|.|||.|+|||+|+||..
T Consensus       212 ~~~v~rgDTl~~is~~~Yg~~~~y~~I~~aNk~~~~~~p~~I~pGq~l~iP~~  264 (269)
T COG1652         212 TNTVKRGDTLWQISKKVYGDGVEYRKIAEANKALVLDNPDKIKPGQVLRIPDQ  264 (269)
T ss_pred             EEEeccCCcccccchhhcCcceEEEeHhhhhhhhccCCCCcCCCcceeeCCCc
Confidence            7999999999999999 5764    3999997  6999999999999999874

>PRK13914 invasion associated secreted endopeptidase; Provisional

Probab=98.95  E-value=2.1e-09  Score=95.13  Aligned_cols=45  Identities=27%  Similarity=0.429  Sum_probs=37.4

Q ss_pred             ceEEeccCchHHHHHHHhCC-hh-hhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523           77 EIYVVGEGETLHTISDKCGD-PF-IVEHNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~gd-~~-il~~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      ..|+||+|||||+||++||. .. |.++| +| +++.|+|||+|+|+..
T Consensus        28 ~tytVq~GDTLw~IA~~ygvtv~~I~~~N-~l-~~~~I~~Gq~L~Ip~~   74 (481)
T PRK13914         28 STVVVEAGDTLWGIAQSKGTTVDAIKKAN-NL-TTDKIVPGQKLQVNEV   74 (481)
T ss_pred             ceEEECCCCCHHHHHHHHCCCHHHHHHHh-CC-CcccccCCCEEEeCCC
Confidence            35999999999999999994 44 55666 77 5789999999999753

>smart00257 LysM Lysin motif

Probab=98.93  E-value=2.2e-09  Score=59.36  Aligned_cols=42  Identities=40%  Similarity=0.627  Sum_probs=34.9

Q ss_pred             eEEeccCchHHHHHHHhC-Ch-hhhhhCCCCCCCCCcCCCcEEEe
Q 035523           78 IYVVGEGETLHTISDKCG-DP-FIVEHNPHIHDPDDLFPGLVIKI  120 (125)
Q Consensus        78 ~Y~Vk~GDTL~~IA~r~g-d~-~il~~Np~I~nP~~I~PGQvIrI  120 (125)
                      .|+|++|||+|+||.+|| +. .+.+.|| ..++..++||+.|+|
T Consensus         1 ~~~v~~gdt~~~ia~~~~~~~~~~~~~N~-~~~~~~~~~g~~l~i   44 (44)
T smart00257        1 TYTVKKGDTLSSIARRYGISVSDLLELNN-ILDPDNLQVGQKLKI   44 (44)
T ss_pred             CeEeCCCCCHHHHHHHhCCCHHHHHHHcC-CCCccccCCCCEEeC
Confidence            489999999999999998 43 4777776 557789999999975

>COG1388 LytE FOG: LysM repeat [Cell envelope biogenesis, outer membrane]

Probab=98.80  E-value=6.9e-09  Score=73.56  Aligned_cols=46  Identities=22%  Similarity=0.294  Sum_probs=36.7

Q ss_pred             CceEEeccCchHHHHHHHhCC-hhhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523           76 DEIYVVGEGETLHTISDKCGD-PFIVEHNPHIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        76 ~~~Y~Vk~GDTL~~IA~r~gd-~~il~~Np~I~nP~~I~PGQvIrI~~  122 (125)
                      ...|+|++||||+.||.+||. ...+.+.|++.++ .|++||+|+++.
T Consensus        66 ~~~~~V~~gdtL~~Ia~~~~~tv~~l~~~n~l~~~-~i~~gq~l~~~~  112 (124)
T COG1388          66 VVTYTVKKGDTLSKIARKYGVTVAELKQLNNLSSD-KIKVGQKLKLPV  112 (124)
T ss_pred             CceEEEecCCCHHHHHHHhCCCHHHHHHHhccCCC-ceecCcEEEEec
Confidence            357999999999999999994 4444444466666 999999999963

>TIGR02907 spore_VI_D stage VI sporulation protein D

Probab=98.79  E-value=6e-09  Score=89.06  Aligned_cols=45  Identities=22%  Similarity=0.387  Sum_probs=37.9

Q ss_pred             CCceEEeccCchHHHHHHHhCC-hh-hhhhCCCCCCCCCcCCCcEEEeC
Q 035523           75 CDEIYVVGEGETLHTISDKCGD-PF-IVEHNPHIHDPDDLFPGLVIKIT  121 (125)
Q Consensus        75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~-il~~Np~I~nP~~I~PGQvIrI~  121 (125)
                      ....|+||+|||||+||+|||. .. |.++| ++. |+.|++||+|.||
T Consensus       292 ~~~~YiVq~GDTL~sIAkRYGVSV~~L~r~N-~L~-~~~L~~GQ~L~IP  338 (338)
T TIGR02907       292 KLRMCIVQEGDTIETIAERYEISVSQLIRHN-QLE-DFEVNEGQILYIP  338 (338)
T ss_pred             ccEEEEECCCCCHHHHHHHHCcCHHHHHHHh-CCC-ccccCCCCEEEeC
Confidence            4468999999999999999995 44 55555 776 8999999999986

SpoVID, the stage VI sporulation protein D, is restricted to endospore-forming members of the bacteria, all of which are found among the Firmicutes. It is widely distributed but not quite universal in this group. Between well-conserved N-terminal and C-terminal domains is a poorly conserved, low-complexity region of variable length, rich enough in glutamic acid to cause spurious BLAST search results unless a filter is used. The seed alignment for this model was trimmed, in effect, by choosing member sequences in which these regions are relatively short. SpoVID is involved in spore coat assembly by the mother cell compartment late in the process of sporulation.

>PRK06347 autolysin; Reviewed

Probab=98.74  E-value=9.5e-09  Score=92.57  Aligned_cols=46  Identities=17%  Similarity=0.239  Sum_probs=37.1

Q ss_pred             CCceEEeccCchHHHHHHHhCC-hhhhhhCCCCCCCCCcCCCcEEEeC
Q 035523           75 CDEIYVVGEGETLHTISDKCGD-PFIVEHNPHIHDPDDLFPGLVIKIT  121 (125)
Q Consensus        75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~il~~Np~I~nP~~I~PGQvIrI~  121 (125)
                      +...|+||+|||||+||+|||. ...|.++|+|. ++.|+|||+|.|.
T Consensus       546 ~~~~Y~Vk~GDTL~sIA~KygvSv~~L~~~N~L~-~~~L~~GQ~L~I~  592 (592)
T PRK06347        546 TVKTYTVKKGDSLWAISRQYKTTVDNIKAWNKLT-SNMIHVGQKLTIK  592 (592)
T ss_pred             cceeeecCCCCcHHHHHHHhCCCHHHHHHhcCCC-cccCCCCCEEecC
Confidence            3568999999999999999994 44445555675 6889999999984

>PRK10783 mltD membrane-bound lytic murein transglycosylase D; Provisional

Probab=98.72  E-value=1.4e-08  Score=88.40  Aligned_cols=46  Identities=22%  Similarity=0.317  Sum_probs=37.0

Q ss_pred             CCceEEeccCchHHHHHHHhCC-hh-hhhhCCCCCCCCCcCCCcEEEeCC
Q 035523           75 CDEIYVVGEGETLHTISDKCGD-PF-IVEHNPHIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~-il~~Np~I~nP~~I~PGQvIrI~~  122 (125)
                      +...|+||+|||||+||.|||. .. |.++|+ +.++ .|+|||+|+|.-
T Consensus       401 ~~~~Y~Vr~GDTL~sIA~kygVtv~~L~~~N~-l~~~-~L~pGq~L~l~v  448 (456)
T PRK10783        401 DSITYRVRKGDSLSSIAKRHGVNIKDVMRWNS-DTAK-NLQPGDKLTLFV  448 (456)
T ss_pred             cceeEEeCCCCCHHHHHHHhCCCHHHHHHhcC-CCCC-cCCCCCEEEEec
Confidence            4467999999999999999994 44 666665 5444 999999999854

>PRK13914 invasion associated secreted endopeptidase; Provisional

Probab=98.63  E-value=4.7e-08  Score=86.69  Aligned_cols=48  Identities=17%  Similarity=0.209  Sum_probs=38.4

Q ss_pred             CCceEEeccCchHHHHHHHhCC-hhhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523           75 CDEIYVVGEGETLHTISDKCGD-PFIVEHNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~il~~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      ....|+||+|||||+||++||. ...+.++|+|.+ +.|+|||+|+|+..
T Consensus       198 ~a~tytVq~GDTL~sIAkrYgVtv~eI~~~N~l~s-~~L~pGQ~L~Ip~s  246 (481)
T PRK13914        198 NATTHAVKSGDTIWALSVKYGVSVQDIMSWNNLSS-SSIYVGQKLAIKQT  246 (481)
T ss_pred             CCeEEEECCCCCHHHHHHHHCCCHHHHHHhcCCCc-cccCCCCEEEecCC
Confidence            4478999999999999999995 444444447865 57999999999864

>PRK06347 autolysin; Reviewed

Probab=98.59  E-value=5.4e-08  Score=87.75  Aligned_cols=47  Identities=21%  Similarity=0.418  Sum_probs=37.3

Q ss_pred             CCceEEeccCchHHHHHHHhCC-hhhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523           75 CDEIYVVGEGETLHTISDKCGD-PFIVEHNPHIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~il~~Np~I~nP~~I~PGQvIrI~~  122 (125)
                      +...|+||+|||||+||.+||. ...|.++|+|. .+.|+|||+|+|+.
T Consensus       478 ~~~~YtVk~GDTL~sIAkkygVSv~~L~~~N~l~-s~~L~~GQ~L~Ip~  525 (592)
T PRK06347        478 NAKVYTVAKGDSLWRIANNNKVTIANLKSWNNLK-SDFIYPGQKLKVSA  525 (592)
T ss_pred             cceeeeecCCCCHHHHHHHHCCCHHHHHHhcCCC-cccccCCcEEEEec
Confidence            4567999999999999999995 44444444565 46899999999975

>PRK10783 mltD membrane-bound lytic murein transglycosylase D; Provisional

Probab=98.39  E-value=4.8e-07  Score=78.93  Aligned_cols=46  Identities=24%  Similarity=0.332  Sum_probs=37.2

Q ss_pred             CceEEeccCchHHHHHHHhCC-hh-hhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523           76 DEIYVVGEGETLHTISDKCGD-PF-IVEHNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        76 ~~~Y~Vk~GDTL~~IA~r~gd-~~-il~~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      ...|+|++|||||+||.+||. .. +.++| .+.+ +.|.|||+|.|+.+
T Consensus       343 ~~~y~Vk~GDTL~sIA~r~gvs~~~L~~~N-~l~~-~~L~~Gq~L~Ip~~  390 (456)
T PRK10783        343 SRSYKVRSGDTLSGIASRLNVSTKDLQQWN-NLRG-SKLKVGQTLTIGAG  390 (456)
T ss_pred             ceEEEECCCCcHHHHHHHHCcCHHHHHHHc-CCCc-ccCCCCCEEEecCC
Confidence            457999999999999999994 44 55555 4555 88999999999763

>TIGR03505 FimV_core FimV N-terminal domain

Probab=98.22  E-value=8.6e-07  Score=60.95  Aligned_cols=38  Identities=24%  Similarity=0.398  Sum_probs=32.5

Q ss_pred             chHHHHHHHhC-C----h-----hhhhhCCCC---CCCCCcCCCcEEEeCC
Q 035523           85 ETLHTISDKCG-D----P-----FIVEHNPHI---HDPDDLFPGLVIKITA  122 (125)
Q Consensus        85 DTL~~IA~r~g-d----~-----~il~~Np~I---~nP~~I~PGQvIrI~~  122 (125)
                      ||||+||.+|. +    .     .|+++||+.   .|++.|++|++|+||.
T Consensus         1 DTLw~IA~~~~~~~~~s~~q~m~ai~~aNp~AF~~~nin~L~~G~~L~iP~   51 (74)
T TIGR03505         1 DTLWGIAQRVRPDNSVSLYQMMLALYRANPDAFIGGNINRLKVGQILRIPS   51 (74)
T ss_pred             CcHHHHHHHHccCCCCCHHHHHHHHHHHCHHhHhcCChhhcCCCCEEeCCC
Confidence            89999999992 1    1     389999976   5899999999999986

This region is found at, or about 200 amino acids from, the N-terminus of FimV from Pseudomonas aeruginosa, TspA of Neisseria meningitidis, and related proteins. Disruption of FimV blocks twitching motility from type IV pili; Semmler, et al. suggest a role for this family in peptidoglycan layer remodelling required by type IV fimbrial systems. Most but not all members of this protein family have a C-terminal region recognized by TIGR03504. In between is a highly variable, often repeat-filled region rich in the negatively charged amino acids Asp and Glu.

>PRK10260 L,D-transpeptidase; Provisional

Probab=98.13  E-value=8.9e-06  Score=68.93  Aligned_cols=47  Identities=23%  Similarity=0.312  Sum_probs=40.2

Q ss_pred             CceEEeccCch--HHHHHHHhC--ChhhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523           76 DEIYVVGEGET--LHTISDKCG--DPFIVEHNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        76 ~~~Y~Vk~GDT--L~~IA~r~g--d~~il~~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      ...|+|++|||  |-+||++|+  ...+.++||.+ ||....+|++|.|+..
T Consensus        40 ~~~~~v~~~~~~~le~iA~~f~~g~~~l~~aNPgv-dp~lp~~G~~i~iP~~   90 (306)
T PRK10260         40 NQVITIPEGNTQPLEYFAAEYQMGLSNMMEANPGV-DTFLPKGGTVLNIPQQ   90 (306)
T ss_pred             cEEEEeCCCCCchHHHHHHHhCCCHHHHHHhCcCC-CCCcCCCCCEEEeCCc
Confidence            45799999765  999999997  34699999988 7999999999999763

>PF04225 OapA: Opacity-associated protein A LysM-like domain; InterPro: IPR007340 This entry includes the Haemophilus influenzae opacity-associated protein

Probab=98.13  E-value=1.9e-06  Score=60.10  Aligned_cols=44  Identities=27%  Similarity=0.423  Sum_probs=27.3

Q ss_pred             ceEEeccCchHHHHHHHhCCh-----hhhhhCCCCCCCCCcCCCcEEEe
Q 035523           77 EIYVVGEGETLHTISDKCGDP-----FIVEHNPHIHDPDDLFPGLVIKI  120 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~gd~-----~il~~Np~I~nP~~I~PGQvIrI  120 (125)
                      ..|+|++||||..|=.++|.+     .++++...-+.=..|+|||.|.+
T Consensus         3 ~~~~V~~GDtLs~iF~~~gls~~dl~~v~~~~~~~k~L~~L~pGq~l~f   51 (85)
T PF04225_consen    3 QEYTVKSGDTLSTIFRRAGLSASDLYAVLEADGEAKPLTRLKPGQTLEF   51 (85)
T ss_dssp             -EEE--TT--HHHHHHHTT--HHHHHHHHHHGGGT--GGG--TT-EEEE
T ss_pred             cEEEECCCCcHHHHHHHcCCCHHHHHHHHhccCccchHhhCCCCCEEEE
Confidence            469999999999999999953     48887755555588999999987

This protein is required for efficient nasopharyngeal mucosal colonization, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [].; PDB: 2GU1_A.

>PRK10190 L,D-transpeptidase; Provisional

Probab=98.01  E-value=1.7e-05  Score=67.31  Aligned_cols=47  Identities=21%  Similarity=0.212  Sum_probs=40.4

Q ss_pred             CceEEeccCc--hHHHHHHHhCC--hhhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523           76 DEIYVVGEGE--TLHTISDKCGD--PFIVEHNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        76 ~~~Y~Vk~GD--TL~~IA~r~gd--~~il~~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      ...|+|+++|  +|-+||++|+.  ..+.++||.+ ||....+|++|.||..
T Consensus        37 ~~~~~v~~~~~~~le~iA~~f~~g~~~l~~aNPgv-d~~~p~~G~~i~iP~~   87 (310)
T PRK10190         37 SLTVTVPDHNTQPLETFAAQYGQGLSNMLEANPGA-DVFLPKSGSQLTIPQQ   87 (310)
T ss_pred             eEEEEecCCCCccHHHHHHHhCCCHHHHHHhCCCC-CCCCCCCCCEEEecCc
Confidence            4679999977  59999999973  4699999988 7999999999999863

>PF05489 Phage_tail_X: Phage Tail Protein X; InterPro: IPR008861 This entry is represented by Bacteriophage P2, GpX

Probab=97.77  E-value=4.5e-05  Score=50.53  Aligned_cols=45  Identities=31%  Similarity=0.493  Sum_probs=37.2

Q ss_pred             eEEeccCchHHHHHHHh-CCh-----hhhhhCCCCCCC-CCcCCCcEEEeCCC
Q 035523           78 IYVVGEGETLHTISDKC-GDP-----FIVEHNPHIHDP-DDLFPGLVIKITAP  123 (125)
Q Consensus        78 ~Y~Vk~GDTL~~IA~r~-gd~-----~il~~Np~I~nP-~~I~PGQvIrI~~~  123 (125)
                      .|+. .||||=.|++|+ |+.     .++++||++.+- ..+-.|.+|+||..
T Consensus         3 v~t~-~GDtlD~I~~r~yG~~~~~~e~ll~aNp~La~~~~~lpaG~~I~lP~i   54 (60)
T PF05489_consen    3 VYTT-QGDTLDLIAYRHYGREDGAVEALLEANPGLADTGPVLPAGTVIILPDI   54 (60)
T ss_pred             EEEe-CcCcHHHHHHHHhCcHHHHHHHHHHHChhhhhcCCcCCCCCEEECCCC
Confidence            3555 999999999995 853     489999999988 66677999999864

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family is found in a family of phage tail proteins. Sequence analysis suggests that they are related to IPR002482 from INTERPRO which suggests a general peptidoglycan binding function.

>COG3170 FimV Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.25  E-value=0.00034  Score=65.31  Aligned_cols=59  Identities=24%  Similarity=0.330  Sum_probs=44.4

Q ss_pred             eecccccCCCCCCceEEeccCchHHHHHHHh-C-Ch--------hhhhhCCCC---CCCCCcCCCcEEEeCC
Q 035523           64 MVLNKYEYSRPCDEIYVVGEGETLHTISDKC-G-DP--------FIVEHNPHI---HDPDDLFPGLVIKITA  122 (125)
Q Consensus        64 ~~~~~~~~~~~~~~~Y~Vk~GDTL~~IA~r~-g-d~--------~il~~Np~I---~nP~~I~PGQvIrI~~  122 (125)
                      +++.........+..|+|++|||||+||.+. + +-        .+.+.||+-   .|=+.+.+|++||||.
T Consensus       176 ~vR~~A~~~~a~g~tyt~~~~Dtl~dIAs~~rp~~~vt~~Q~~lAly~lNP~af~~gni~RLr~GSvLriP~  247 (755)
T COG3170         176 PVRQPAPAPAAPGDTYTVRSGDTLWDIASRLRPQDHVTVEQMLLALYQLNPQAFVNGNINRLRAGSVLRIPS  247 (755)
T ss_pred             cccCcccCCCCCCcccccCCcchHHHHHHhhcCcccccHHHHHHHHHhhChhhhcccchhhccccceeeccc
Confidence            3444433223466789999999999999997 4 21        389999865   4668999999999985

>PRK11649 putative peptidase; Provisional

Probab=96.46  E-value=0.0031  Score=55.15  Aligned_cols=42  Identities=26%  Similarity=0.388  Sum_probs=33.7

Q ss_pred             ceEEeccCchHHHHHHHhCCh-----hhhhhCCCCCCCCCcCCCcEEEeC
Q 035523           77 EIYVVGEGETLHTISDKCGDP-----FIVEHNPHIHDPDDLFPGLVIKIT  121 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~gd~-----~il~~Np~I~nP~~I~PGQvIrI~  121 (125)
                      ..|+|++||||.+|=.++|.+     .+++++   .+...|+|||.|++.
T Consensus        96 ~~~~Vk~GDTl~~iL~r~Gi~~~di~~l~~~~---~~L~~Lr~Gq~l~~~  142 (439)
T PRK11649         96 HEYVVSTGDTLSSILNQYGIDMSDISQLAAQD---KELRNLKIGQQLSWT  142 (439)
T ss_pred             EEEEeCCCCCHHHHHHHcCCCHHHHHHHHHcC---hHhhcCCCCCEEEEE
Confidence            479999999999999999943     255544   356789999999884

>COG3858 Predicted glycosyl hydrolase [General function prediction only]

Probab=96.39  E-value=0.0031  Score=55.85  Aligned_cols=50  Identities=30%  Similarity=0.390  Sum_probs=40.6

Q ss_pred             CCCCceEEeccCchHHHHHHHhCCh-h-hhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523           73 RPCDEIYVVGEGETLHTISDKCGDP-F-IVEHNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        73 ~~~~~~Y~Vk~GDTL~~IA~r~gd~-~-il~~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      .+...+|.|++||||++||.++|.+ . +...| .+..|..+.+|-.|.+|+.
T Consensus        46 ~~~~~~y~~~~~d~~~Sia~~~~vt~~~~~~m~-~~~~~~~l~~~~~l~~P~~   97 (423)
T COG3858          46 PPSGHFYDVGPGDTLTSIARTVGVTQDSAAIMN-FVICPGYLQYGLNLYIPSA   97 (423)
T ss_pred             CCcceEEEecCCcchhhhhhhhcCCHHHHHhhc-ccccccceeeeeEEeccCC
Confidence            4466899999999999999999953 3 44444 5567999999999999874

>COG4254 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.61  E-value=0.012  Score=50.84  Aligned_cols=47  Identities=23%  Similarity=0.164  Sum_probs=41.1

Q ss_pred             ceEEeccCchHHHHHHHh-CC---hhhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523           77 EIYVVGEGETLHTISDKC-GD---PFIVEHNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~-gd---~~il~~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      -.|+|+.||||.-.+..| .+   .+.++.-|++.+|+.+.||-.|+|+.+
T Consensus         6 ~~yrv~~gdtli~l~~~yl~~~~g~r~~q~an~~~~P~~l~pgs~l~ip~~   56 (339)
T COG4254           6 LTYRVLFGDTLILLLGGYLTLLAGSRAAQPANTKRPPFILQPGSCLPIPLP   56 (339)
T ss_pred             ceeeeccccHHHHHHHHhhhccchhhhhcccccCCCCcccCCCccccCCCc
Confidence            469999999999999999 43   457777789999999999999999875

>COG3858 Predicted glycosyl hydrolase [General function prediction only]

Probab=95.32  E-value=0.0097  Score=52.79  Aligned_cols=45  Identities=27%  Similarity=0.361  Sum_probs=39.4

Q ss_pred             ceEEeccCchHHHHHHHhC--ChhhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523           77 EIYVVGEGETLHTISDKCG--DPFIVEHNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~g--d~~il~~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      .+|.|++||+++.|+.+|+  ...|+..| .+.| |+|-|||-+.|++.
T Consensus         2 ~i~~~~pg~~~~~i~~~~~~~~~~i~~~~-~~~~-d~~~~~q~~~v~~~   48 (423)
T COG3858           2 SIHLVGPGDSRLIIAVYFPYTNNRIVNGN-DYTN-DDLVDGQTFVVPPS   48 (423)
T ss_pred             EEEEccCCceeeeehhhcccccccccccc-cccc-ccccCceeEEECCc
Confidence            3689999999999999998  35787777 7888 99999999999884

>COG0739 NlpD Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]

Probab=92.53  E-value=0.17  Score=39.02  Aligned_cols=47  Identities=21%  Similarity=0.325  Sum_probs=34.9

Q ss_pred             ceEEeccCchHHHHHHHhCCh-hhhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523           77 EIYVVGEGETLHTISDKCGDP-FIVEHNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~gd~-~il~~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      ..|+|++||||+.|+.+++.. ..++..+.+..+..+.+||++.++..
T Consensus         2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   49 (277)
T COG0739           2 SLYVVKKGDTLSAIAARLGISAKDLARLNNLLKKRLLRIGQLLRVPRA   49 (277)
T ss_pred             ceEEecCCCHHHHHHHHcCCCHHHHHHHHhhccccccCccceeeeccc
Confidence            359999999999999999853 34444334444448999999998753

>COG5004 P2-like prophage tail protein X [General function prediction only]

Probab=91.19  E-value=0.5  Score=32.87  Aligned_cols=45  Identities=27%  Similarity=0.502  Sum_probs=34.9

Q ss_pred             eEEeccCchHHHHHHHh-CC-----hhhhhhCCCCCCCCCcCC-CcEEEeCC
Q 035523           78 IYVVGEGETLHTISDKC-GD-----PFIVEHNPHIHDPDDLFP-GLVIKITA  122 (125)
Q Consensus        78 ~Y~Vk~GDTL~~IA~r~-gd-----~~il~~Np~I~nP~~I~P-GQvIrI~~  122 (125)
                      +|.-..|||+=.+++|+ |-     ..++++||.|.|-.-++| |-.|.+|-
T Consensus         4 ~~Rt~~gDtvDalc~~~Ygrt~~v~eavl~ANpGlAd~gp~lp~gl~i~lPD   55 (70)
T COG5004           4 IVRTRQGDTVDALCWRVYGRTTGVTEAVLEANPGLADWGPVLPHGLAITLPD   55 (70)
T ss_pred             EEEeccCchHHHHHHHHHhhHHHHHHHHHhcCCChhhcCCCCccceeEecCC
Confidence            46778999999999995 73     259999999998876666 55566543

>COG4784 Putative Zn-dependent protease [General function prediction only]

Probab=90.80  E-value=0.3  Score=43.70  Aligned_cols=45  Identities=18%  Similarity=0.296  Sum_probs=35.9

Q ss_pred             ceEEeccCchHHHHHHHh-CChh---hhhhCCCCCCCCCcCCCcEEEeC
Q 035523           77 EIYVVGEGETLHTISDKC-GDPF---IVEHNPHIHDPDDLFPGLVIKIT  121 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~-gd~~---il~~Np~I~nP~~I~PGQvIrI~  121 (125)
                      ..-+||+|||+-+.|-+- |..+   .+.--|.+..-..+.|||++||-
T Consensus       429 rvvtVk~GqT~~~lAA~m~G~~rkldlfRllNam~~~a~~~pGd~vKii  477 (479)
T COG4784         429 RVVTVKPGQTMASLAARMMGTDRKLDLFRLLNAMSPGATVRPGDKVKII  477 (479)
T ss_pred             EEEEecCCccHHHHHhhccCchhHHHHHHHHhccCCCCcCCCCCeeeec
Confidence            558999999999999996 7443   45555677666899999999985

>TIGR03352 VI_chp_3 type VI secretion lipoprotein, VC_A0113 family

Probab=88.65  E-value=1.2  Score=33.68  Aligned_cols=86  Identities=16%  Similarity=0.173  Sum_probs=39.1

Q ss_pred             HHHHHHHHhhcCCCCCCCCCCcccccccccccceecccccCCCCCC---ceEEeccCchHHH---HHHHhCChhhhhhCC
Q 035523           31 FVLVGILLLSSCSSSSSRDQDRDTSVSIEGTSRMVLNKYEYSRPCD---EIYVVGEGETLHT---ISDKCGDPFIVEHNP  104 (125)
Q Consensus        31 l~l~alLl~cS~~~~~apv~d~~~~~~~~~~~~~~~~~~~~~~~~~---~~Y~Vk~GDTL~~---IA~r~gd~~il~~Np  104 (125)
                      +.++++|.+|++..........  .+++....-  -|+...++|.+   ..|..|.-++.-.   .+..-++...|..+ 
T Consensus         7 l~~~llL~gC~s~~~~~~~~~v--~l~i~a~~~--lNp~~~g~p~PvvvrvyqL~d~~~F~~adf~~L~~~~~~~Lg~~-   81 (146)
T TIGR03352         7 LAACLLLAGCSSAPPPKEPTYV--TLTLTAAPD--VNPDEDGRASPVVVRVYELKSDTKFEAADFFALTEDAKKALGDD-   81 (146)
T ss_pred             HHHHHHHhhccCCCCCCCCeEE--EEEEEecCC--cCCCCCCCccCeEEEEEEECCccccccCCHHHHHhchHHHHHHH-
Confidence            3344567899876443322111  111111110  12222334433   6788887766422   11111222333332 


Q ss_pred             CC-CCCCCcCCCcEEEeC
Q 035523          105 HI-HDPDDLFPGLVIKIT  121 (125)
Q Consensus       105 ~I-~nP~~I~PGQvIrI~  121 (125)
                      -| .+-..+.|||+..+.
T Consensus        82 ll~~~e~~l~PG~~~~~~   99 (146)
T TIGR03352        82 LIEQDEIILLPGEKRKIT   99 (146)
T ss_pred             HhhcceEEECCCCeeEee
Confidence            22 234578999987764

Work by Mougous, et al. (2006), describes IAHP-related loci as a type VI secretion system (PubMed:16763151). This protein family is associated with type VI secretion loci, although not treated explicitly by Mougous, et al.

>COG3061 OapA Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]

Probab=87.61  E-value=0.77  Score=38.41  Aligned_cols=47  Identities=23%  Similarity=0.278  Sum_probs=34.9

Q ss_pred             CCceEEeccCchHHHHHHHhCCh----hhhhhCCCCCCC-CCcCCCcEEEeC
Q 035523           75 CDEIYVVGEGETLHTISDKCGDP----FIVEHNPHIHDP-DDLFPGLVIKIT  121 (125)
Q Consensus        75 ~~~~Y~Vk~GDTL~~IA~r~gd~----~il~~Np~I~nP-~~I~PGQvIrI~  121 (125)
                      ....|+|++|+||...=+.+|-+    +-.+.=..-.+| ..+.-||+|+|.
T Consensus       158 ~wqsy~V~~G~TLaQlFRdn~LpitDVnAMakveGagkpLSnlkaGq~Vki~  209 (242)
T COG3061         158 NWQSYTVPQGKTLAQLFRDNNLPITDVNAMAKVEGAGKPLSNLKAGQKVKIS  209 (242)
T ss_pred             cceeEEecCCccHHHHHhccCCChHHhHHHHhhccCCCchhhccCCCEEEEE
Confidence            34679999999999998778743    333333455677 789999999984

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	125
2l9y_A	167	CVNH-LYSM lectin; carbohydrate, sugar binding prot	99.56
1e0g_A	48	Membrane-bound lytic murein transglycosylase D; ce	99.51
2djp_A	77	Hypothetical protein SB145; LYSM, structural genom	99.44
4eby_A	212	Chitin elicitor receptor kinase 1; pathogen-associ	99.24
4eby_A	212	Chitin elicitor receptor kinase 1; pathogen-associ	99.0
4a1k_A	165	Putative L, D-transpeptidase YKUD; transferase, pe	98.74
2gu1_A	361	Zinc peptidase; alpha/beta, beta barrel, structura	98.53
3slu_A	371	M23 peptidase domain protein; outer membrane, hydr	97.63
2gu1_A	361	Zinc peptidase; alpha/beta, beta barrel, structura	97.56
2l9y_A	167	CVNH-LYSM lectin; carbohydrate, sugar binding prot	96.55

>2l9y_A CVNH-LYSM lectin; carbohydrate, sugar binding protein; NMR {Magnaporthe oryzae 70-15}

Probab=99.56  E-value=1.4e-15  Score=115.11  Aligned_cols=48  Identities=25%  Similarity=0.452  Sum_probs=42.0

Q ss_pred             CCceEEeccCchHHHHHHHhCC-hh-hhhhCCCCCCCCCcCCCcEEEeCCC
Q 035523           75 CDEIYVVGEGETLHTISDKCGD-PF-IVEHNPHIHDPDDLFPGLVIKITAP  123 (125)
Q Consensus        75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~-il~~Np~I~nP~~I~PGQvIrI~~~  123 (125)
                      ....|+||+|||||+||++||. .. |+++| +|.||+.|||||+|+|+..
T Consensus        61 ~~~~y~V~~GDTL~~IA~~~~~~~~~l~~~N-~~~~~~~i~~Gq~L~ip~~  110 (167)
T 2l9y_A           61 GTATVTVQQGDTLRDIGRRFDCDFHEIARRN-NIQNEDLIYPGQVLQVPTK  110 (167)
T ss_dssp             SCEEEEECTTCCHHHHHHHTTCCHHHHHHHH-TCCGGGCCCTTEEEEESCC
T ss_pred             CCceEEECCCCcHHHHHHHcCCCHHHHHHHc-CCCCcccccCCCEEEEcCC
Confidence            5578999999999999999994 43 66666 8999999999999999864

>1e0g_A Membrane-bound lytic murein transglycosylase D; cell WALL, hydrolase, glycosidase, lipoprotein, outer membrane, multigene family; NMR {Escherichia coli} SCOP: d.7.1.1

Probab=99.51  E-value=1.1e-14  Score=86.97  Aligned_cols=43  Identities=26%  Similarity=0.437  Sum_probs=38.2

Q ss_pred             ceEEeccCchHHHHHHHhCCh--hhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523           77 EIYVVGEGETLHTISDKCGDP--FIVEHNPHIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~gd~--~il~~Np~I~nP~~I~PGQvIrI~~  122 (125)
                      ..|+||+|||||+||.+||..  .|.+.|+   +|+.|+|||+|+||.
T Consensus         3 ~~y~V~~GDtl~~Ia~~~~~~~~~l~~~N~---~~~~l~~G~~l~ip~   47 (48)
T 1e0g_A            3 ITYRVRKGDSLSSIAKRHGVNIKDVMRWNS---DTANLQPGDKLTLFV   47 (48)
T ss_dssp             CEEEECTTCCHHHHHHHHTCCHHHHHHHCS---CGGGCCTTEEEECCC
T ss_pred             EEEEEcCCCcHHHHHHHHCcCHHHHHHhCC---CCCcCCcCCEEEEec
Confidence            469999999999999999943  4888887   899999999999985

>2djp_A Hypothetical protein SB145; LYSM, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.44  E-value=2.3e-14  Score=94.16  Aligned_cols=45  Identities=22%  Similarity=0.185  Sum_probs=38.9

Q ss_pred             ceEEeccCchHHHHHHHhCC-hh-hhhhCCCCCCCCCcCCCcEEEeCC
Q 035523           77 EIYVVGEGETLHTISDKCGD-PF-IVEHNPHIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~gd-~~-il~~Np~I~nP~~I~PGQvIrI~~  122 (125)
                      ..|+||+|||||+||++||. .. |.++| ++.+|+.|+|||+|+||.
T Consensus        16 ~~y~V~~GDTL~~IA~~~~~~~~~l~~~N-~l~~~~~l~~Gq~l~iP~   62 (77)
T 2djp_A           16 LEHQLEPGDTLAGLALKYGVTMEQIKRAN-RLYTNDSIFLKKTLYIPI   62 (77)
T ss_dssp             EEECCCTTCCHHHHHHHHTCCHHHHHHHH-TCCCSSCGGGSSCEEEEE
T ss_pred             EEEEECCCCcHHHHHHHHCcCHHHHHHHc-CCCCccccCCCCEEEECC
Confidence            46999999999999999994 43 66666 788999999999999974

>4eby_A Chitin elicitor receptor kinase 1; pathogen-associated molecular patterns, pattern recognition receptors, LYSM, lysine chitin oligomer; HET: NAG BMA; 1.65A {Arabidopsis thaliana} PDB: 4ebz_A*

Probab=99.24  E-value=5.5e-12  Score=98.35  Aligned_cols=46  Identities=24%  Similarity=0.333  Sum_probs=41.4

Q ss_pred             ceEEeccCchHHHHHHHhC-C---------hhhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523           77 EIYVVGEGETLHTISDKCG-D---------PFIVEHNPHIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~g-d---------~~il~~Np~I~nP~~I~PGQvIrI~~  122 (125)
                      ..|+||+|||||+||.+|| .         ..|.++||+|.||+.|++||+|+||.
T Consensus        10 ~~Y~V~~GDTL~~IA~~~~vsv~~~~~~~~~~I~~~Np~l~~~~~l~~Gq~L~IP~   65 (212)
T 4eby_A           10 ASYYLENGTTLSVINQNLNSSIAPYDQINFDPILRYNSNIKDKDRIQMGSRVLVPF   65 (212)
T ss_dssp             EEEECCTTCCHHHHHHHTCCSSSCCCSSCCHHHHTTCTTCSCTTSCCTTCEEEEEE
T ss_pred             EEEEeCCCCCHHHHHHHHCCCchhccccCHHHHHHhccCCCCcCccCCCCEEEEec
Confidence            4699999999999999998 3         35888888999999999999999984

>4eby_A Chitin elicitor receptor kinase 1; pathogen-associated molecular patterns, pattern recognition receptors, LYSM, lysine chitin oligomer; HET: NAG BMA; 1.65A {Arabidopsis thaliana} PDB: 4ebz_A*

Probab=99.00  E-value=1.8e-10  Score=89.78  Aligned_cols=44  Identities=11%  Similarity=0.221  Sum_probs=37.8

Q ss_pred             ceEEeccCchHHHHH-HHhC--Ch--hhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523           77 EIYVVGEGETLHTIS-DKCG--DP--FIVEHNPHIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA-~r~g--d~--~il~~Np~I~nP~~I~PGQvIrI~~  122 (125)
                      ..|+||+|||||+|| ++||  ..  .|.++|+  .+|+.|+|||+|+||.
T Consensus        79 ~~Y~V~~GDTL~~IA~~~y~~lvt~~~L~~~N~--~~~~~l~~Gq~L~IP~  127 (212)
T 4eby_A           79 FSYSVRQEDTYERVAISNYANLTTMESLQARNP--FPATNIPLSATLNVLV  127 (212)
T ss_dssp             EEEECCTTCCHHHHHHTTTTTSSCHHHHHHHCC--SCTTCCCTTCEEEEEE
T ss_pred             eEEEecCCCcHHHHHHHhcCCCCCHHHHHHhcC--CCcccCCCCCEEEEcC
Confidence            579999999999999 7898  43  4777887  4789999999999974

>4a1k_A Putative L, D-transpeptidase YKUD; transferase, peptidoglycan synthesis; HET: CME; 1.75A {Bacillus subtilis} PDB: 4a1j_A 4a1i_A* 1y7m_A 3zqd_A 4a52_A*

Probab=98.74  E-value=6e-09  Score=78.02  Aligned_cols=44  Identities=27%  Similarity=0.432  Sum_probs=37.6

Q ss_pred             ceEEeccCchHHHHHHHhCC--hhhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523           77 EIYVVGEGETLHTISDKCGD--PFIVEHNPHIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~gd--~~il~~Np~I~nP~~I~PGQvIrI~~  122 (125)
                      .+|+||+||||.+||++|+.  ..+.++||.+ ||. +.+||+|.||.
T Consensus         3 ~~y~V~~GdtL~~IA~~f~~g~~~l~~aNp~v-d~~-l~~g~~i~ip~   48 (165)
T 4a1k_A            3 LTYQVKQGDTLNSIAADFRISTAALLQANPSL-QAG-LTAGQSIVIPG   48 (165)
T ss_dssp             EEEECCTTCCHHHHHHHTTCCHHHHHHHCGGG-GGC-CCTTCEEEETT
T ss_pred             EEEEECCCCCHHHHHHHhCCCHHHHHHhCccC-CCc-cCCCccccCcc
Confidence            46999999999999999984  3599999876 665 58999999964

>2gu1_A Zinc peptidase; alpha/beta, beta barrel, structural genomics, PSI, protein structure initiative; 1.90A {Vibrio cholerae}

Probab=98.53  E-value=1.8e-08  Score=82.80  Aligned_cols=48  Identities=21%  Similarity=0.144  Sum_probs=37.3

Q ss_pred             CCceEEeccCchHHHHHHHhCC-hh-hhhhCCCC---CCCCCcCCCcEEEeCC
Q 035523           75 CDEIYVVGEGETLHTISDKCGD-PF-IVEHNPHI---HDPDDLFPGLVIKITA  122 (125)
Q Consensus        75 ~~~~Y~Vk~GDTL~~IA~r~gd-~~-il~~Np~I---~nP~~I~PGQvIrI~~  122 (125)
                      ....|+||+|||||+||++||. .. |.+.|+..   .+++.|+|||+|+|+.
T Consensus         6 ~~~~~~Vk~GDTL~~Ia~r~gvs~~~l~~~n~~~~~~~~~~~L~~Gq~L~i~~   58 (361)
T 2gu1_A            6 KRIHYMVKVGDTLSGIFAQLGVPYSILQKILSVDLDHLQLDMIQPGEELELMM   58 (361)
T ss_dssp             -CEEEECCTTCCHHHHHHHTTCCHHHHHHHHHHGGGTCCGGGCCTTCEEEEEE
T ss_pred             CceEEEECCCCcHHHHHHHcCCCHHHHHHHHhhcccccchhcCCCCCEEEEEE
Confidence            4567999999999999999994 33 55555432   3589999999999963

>3slu_A M23 peptidase domain protein; outer membrane, hydrolase; 2.41A {Neisseria meningitidis}

Probab=97.63  E-value=4e-05  Score=64.21  Aligned_cols=47  Identities=17%  Similarity=0.108  Sum_probs=34.6

Q ss_pred             CCceEEeccCchHHHHHHHhCCh-----hhhhhCCCCCCCCCcCCCcEEEeC
Q 035523           75 CDEIYVVGEGETLHTISDKCGDP-----FIVEHNPHIHDPDDLFPGLVIKIT  121 (125)
Q Consensus        75 ~~~~Y~Vk~GDTL~~IA~r~gd~-----~il~~Np~I~nP~~I~PGQvIrI~  121 (125)
                      ....|+|++||||.+|-.++|.+     .++++.....+...|+|||.|++.
T Consensus        13 ~W~~~~V~~GDTL~~IL~r~Gls~~di~~i~~~~~~~~~l~~LrpGq~l~i~   64 (371)
T 3slu_A           13 YWVQEAVQPGDSLADVLARSGMARDEIARITEKYGGEADLRHLRADQSVHVL   64 (371)
T ss_dssp             EEEEEECCTTCCHHHHHHHTTCCHHHHHHHHTTC------CCBCSSSEEEEE
T ss_pred             ceEEEEECCCCcHHHHHHHcCCCHHHHHHHHHhccccCchhhCCCCCEEEEE
Confidence            44679999999999999999942     366667777789999999999984

>2gu1_A Zinc peptidase; alpha/beta, beta barrel, structural genomics, PSI, protein structure initiative; 1.90A {Vibrio cholerae}

Probab=97.56  E-value=2.4e-05  Score=64.28  Aligned_cols=45  Identities=11%  Similarity=0.084  Sum_probs=32.8

Q ss_pred             ceEEeccCchHHHHHHHhCC-hhhhhhCCCCCCC-----CCcCCCcEEEeC
Q 035523           77 EIYVVGEGETLHTISDKCGD-PFIVEHNPHIHDP-----DDLFPGLVIKIT  121 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~gd-~~il~~Np~I~nP-----~~I~PGQvIrI~  121 (125)
                      ..|+|+.|||||+||.++|. +..+.++++|...     ..|+|||+++|.
T Consensus       101 ~~~~v~igdSL~~iA~~~Gvs~~~i~~ln~i~~~~idf~~~Lr~GD~l~V~  151 (361)
T 2gu1_A          101 ILFSGEINGSFSVSARRVGLTSSQVANITQVMKDKIDFSRSLRAGDRFDIL  151 (361)
T ss_dssp             EEEEEESSSCHHHHHHHTTCCHHHHHHHHHHHTTTCCTTTCCCC-CEEEEE
T ss_pred             EEEEEEECCcHHHHHHHcCCCHHHHHHHHHhhcccccccccCCCCCEEEEE
Confidence            46999999999999999994 4433333344332     569999999985

>2l9y_A CVNH-LYSM lectin; carbohydrate, sugar binding protein; NMR {Magnaporthe oryzae 70-15}

Probab=96.55  E-value=3.3e-05  Score=58.10  Aligned_cols=34  Identities=18%  Similarity=0.227  Sum_probs=30.3

Q ss_pred             ceEEeccCchHHHHHHHhCCh--hhhhhCCCCCCCC
Q 035523           77 EIYVVGEGETLHTISDKCGDP--FIVEHNPHIHDPD  110 (125)
Q Consensus        77 ~~Y~Vk~GDTL~~IA~r~gd~--~il~~Np~I~nP~  110 (125)
                      ..|+|++||||++||+++|..  .++..|++|.|+|
T Consensus       126 ~~~~v~~GdtL~aIA~r~G~~v~s~i~Ln~~I~N~n  161 (167)
T 2l9y_A          126 DVRLVDGGKVLEAELRYSGGWNRSRIYLDEHIGNRN  161 (167)
T ss_dssp             EEEEETTTTEEEEEEEETTEEEEEEECGGGTEEESS
T ss_pred             eEEEeCCcCChHHHHHHcCCceEEEEEcccccCcCC
Confidence            579999999999999999854  5888899999997

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	125
d1e0ga_	48	d.7.1.1 (A:) Membrane-bound lytic murein transclyc	3e-04

>d1e0ga_ d.7.1.1 (A:) Membrane-bound lytic murein transclycosylase D, MltD {Escherichia coli [TaxId: 562]} Length = 48

class: Alpha and beta proteins (a+b)
fold: LysM domain
superfamily: LysM domain
family: LysM domain
domain: Membrane-bound lytic murein transclycosylase D, MltD
species: Escherichia coli [TaxId: 562]

 Score = 34.2 bits (79), Expect = 3e-04
 Identities = 11/44 (25%), Positives = 22/44 (50%), Gaps = 5/44 (11%)

Query: 79  YVVGEGETLHTISDKCGDPF--IVEHNPHIHDPDDLFPGLVIKI 120
           Y V +G++L +I+ + G     ++  N    D  +L PG  + +
Sbjct: 5   YRVRKGDSLSSIAKRHGVNIKDVMRWN---SDTANLQPGDKLTL 45

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	125
d1y7ma2	48	Hypothetical protein YkuD, N-terminal domain {Baci	99.57
d1e0ga_	48	Membrane-bound lytic murein transclycosylase D, Ml	99.52

>d1y7ma2 d.7.1.1 (A:1-48) Hypothetical protein YkuD, N-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: LysM domain
superfamily: LysM domain
family: LysM domain
domain: Hypothetical protein YkuD, N-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.57  E-value=6.9e-16  Score=94.97  Aligned_cols=43  Identities=28%  Similarity=0.416  Sum_probs=36.5

Q ss_pred             eEEeccCchHHHHHHHhCCh--hhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523           78 IYVVGEGETLHTISDKCGDP--FIVEHNPHIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        78 ~Y~Vk~GDTL~~IA~r~gd~--~il~~Np~I~nP~~I~PGQvIrI~~  122 (125)
                      .|+||+|||||+||+|||..  .|.++|| +.+| .|+|||+|+||.
T Consensus         3 ~y~V~~GDTL~~IA~~y~v~~~~i~~~N~-~~~~-~l~~Gq~L~IPg   47 (48)
T d1y7ma2           3 TYQVKQGDTLNSIAADFRISTAALLQANP-SLQA-GLTAGQSIVIPG   47 (48)
T ss_dssp             EEECCTTCCHHHHHHHTTSCCCCCCCTSC-TTCS-SCCTTCEEEETT
T ss_pred             EEEECCCCCHHHHHHHhCCCHHHHHHHcC-CCCC-CCCCCCEEEeCC
Confidence            59999999999999999943  4777775 6677 599999999984

>d1e0ga_ d.7.1.1 (A:) Membrane-bound lytic murein transclycosylase D, MltD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: LysM domain
superfamily: LysM domain
family: LysM domain
domain: Membrane-bound lytic murein transclycosylase D, MltD
species: Escherichia coli [TaxId: 562]

Probab=99.52  E-value=3.2e-15  Score=92.56  Aligned_cols=42  Identities=24%  Similarity=0.380  Sum_probs=35.1

Q ss_pred             eEEeccCchHHHHHHHhCC-h-hhhhhCCCCCCCCCcCCCcEEEeCC
Q 035523           78 IYVVGEGETLHTISDKCGD-P-FIVEHNPHIHDPDDLFPGLVIKITA  122 (125)
Q Consensus        78 ~Y~Vk~GDTL~~IA~r~gd-~-~il~~Np~I~nP~~I~PGQvIrI~~  122 (125)
                      .|+||+|||||+||.+||. . .|.++| ++.  +.|+|||+|+|+-
T Consensus         4 ~y~V~~GDTl~~IA~~y~vs~~~i~~~N-~l~--~~l~~Gq~L~i~v   47 (48)
T d1e0ga_           4 TYRVRKGDSLSSIAKRHGVNIKDVMRWN-SDT--ANLQPGDKLTLFV   47 (48)
T ss_dssp             EEEECTTCCHHHHHHHHTCCHHHHHHHC-SCG--GGCCTTEEEECCC
T ss_pred             EEEECCCCCHHHHHHHHCCCHHHHHHHc-CCc--ccCcCCCEEEEEe
Confidence            6999999999999999994 3 477777 564  4799999999974